Gene detail

Detailed information of OS493_027316-T1 in Lophelia pertusa

Genomic Location: scaffold_148:193518...202244
NR annotation: KAJ7371202.1, hypothetical protein OS493_027316 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q0DAE4	Glutaredoxin-C8 OS=Oryza sativa subsp. japonica OX=39947 GN=GRXC8 PE=2 SV=2
Q6H628	Monothiol glutaredoxin-S6 OS=Oryza sativa subsp. japonica OX=39947 GN=GRXS6 PE=2 SV=1
Q9FVX1	Glutaredoxin-C3 OS=Arabidopsis thaliana OX=3702 GN=GRXC3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002147 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00462 all species →	Glutaredoxin	Glutaredoxin	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011899 all species →	Domain	Glutaredoxin, eukaryotic/virial	Interproscan
IPR002109 all species →	Domain	Glutaredoxin	Interproscan
IPR014025 all species →	Domain	Glutaredoxin subgroup	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45694 all species →	GLUTAREDOXIN 2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0015038 all species →	Molecular Function	glutathione disulfide oxidoreductase activity	Interproscan
GO:0034599 all species →	Biological Process	cellular response to oxidative stress	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K03676	grxC, GLRX, GLRX2; glutaredoxin 3	-	Chaperones and folding catalysts	ko03110	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_027316-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

110TPM > 0

7Conditions

46.6Max TPM

11.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	14.02	27.22
polyp at pH7 6	18	18	12.18	18.88
coral polyp · control treatment	16	16	13.94	46.61
coral polyp · oil and dispersant treatment	16	16	8.85	28.07
coral polyp · oil treatment	16	16	10.14	20.29
coral polyp · dispersant treatment	16	16	6.35	11.00
Polyp	10	10	17.14	27.31

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.22
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.05
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.68
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.57
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.53
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.24
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.40
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.02
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.71
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.59
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.73
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.50
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.30
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.39
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.79
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.38
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.88
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.48
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.87
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.68
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.30
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.19
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.14
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.44
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.06
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.75
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.45
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.25
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.85
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.83
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.57
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.25
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.13
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.18
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.75
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.47
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.18
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.57
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.43
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.73
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.76
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.30
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.21
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.86
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.98
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.26
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.15
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.43
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.07
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.53
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.38
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.21
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.67
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.21
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.12
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.92
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.40
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.65
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.34
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.71
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.14
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.83
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.38
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.04
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.29
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.17
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.51
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.30
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.23
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.38
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.88
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.16
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.96
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.42
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.17
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.11
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.90
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.34
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.03
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.31
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.25
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.09
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.53
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.82
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.77
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.76
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.61
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.10
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.21
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.20
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.78
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.77
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.41
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.18
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	27.31
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	24.52
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	21.78
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	21.65
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	15.49
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	14.60
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	13.30
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	13.27
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.92
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.52

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.